Simultaneous dual-colour labelling of mitochondria and lysosomes: an indolium-based approach

Fluorescence is a valuable tool for understanding mitochondria-lysosome interactions, which is central for unveiling their roles in health and disease. Herein, we describe novel indolium-based molecules for labelling mitochondria and lysosomes simultaneously with organelle-specific fluorescence properties. These probes readily enable clear distinction of mitochondria and lysosomes by combining confocal and two-photon fluorescence microscopy. Our results show that this unique behaviour relies on aggregation. The functioning of these probes is not compromised by mitophagy, allowing the visualisation of these organelles in separate emission channels by using a single fluorescent marker under all scenarios. Their enhanced experimental simplicity compared to using multiple dyes makes these novel compounds well-suited for automated screening applications within living cells.